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User:RobertBuels

Tue, 07/07/2020 - 15:37

← Older revision Revision as of 19:37, 7 July 2020 Line 1: Line 1:  [[Image:Rbuels and pretty flowers.jpg|300px]] [[Image:Rbuels and pretty flowers.jpg|300px]]    −'''Robert Buels''' is a bioinformatics software developer currently living in Cambridge, Massachusetts.  From 2004 to 2012, he worked at the [http://solgenomics.net Sol Genomics Network], an clade-oriented database for the Solanaceae and other plants.+'''Robert Buels''' is a bioinformatics software developer currently living in Seattle, Washington.  From 2004 to 2012, he worked at the [http://solgenomics.net Sol Genomics Network], an clade-oriented database for the Solanaceae and other plants.     From January 2012 to March 2014, he was the lead developer on the [[JBrowse]] project. From January 2012 to March 2014, he was the lead developer on the [[JBrowse]] project.     In March 2014, Rob moved to a role as a software developer on the Knowledge Informatics team at [http://foundationmedicine.com Foundation Medicine]. In March 2014, Rob moved to a role as a software developer on the Knowledge Informatics team at [http://foundationmedicine.com Foundation Medicine].  +  +Starting in 2018, Rob became the technical lead for the JBrowse 2 development team.     [http://twitter.com/rbuels rbuels tweets] [http://twitter.com/rbuels rbuels tweets] RobertBuels
Categories: Bio

GSoD

Wed, 05/06/2020 - 22:38

‎Google Season of Docs 2020 @ Open Genome Informatics

← Older revision Revision as of 02:38, 7 May 2020 (4 intermediate revisions by the same user not shown)Line 1: Line 1: −Test - to be updated+== Google Season of Docs 2020 @ Open Genome Informatics ==  +   +“Fostering open-source collaboration with technical writers” – Season of Docs  +   +Established upon the reputation of open source community programs like Google Summer of Code and Google Code-in, Google is introducing a new initiative called Season of Docs. The Open Genome Informatics has applied to participate in this year's Season of Docs.  +   +Season of Docs aims to provide open source projects with an opportunity to engage with the technical writing community and for technical writers an occasion to gain experience in contributing to open source projects.  +   +Together, we will raise community awareness of open documentation, technical writing, and how we can collectively work together to improve open source projects. Open Genome Informatics looks forward to the opportunity that Season of Docs presents and for the opportunity to bring our entire community closer together.  +   +Since 2011, the Open Genome Informatics group has served as an "umbrella organization" to a variety of bioinformatics projects, including [[Main Page|GMOD]] and its software projects -- [[JBrowse]], [[Apollo]], [[Chado]], [[Galaxy]] etc.; [http://www.informatics.jax.org/ Mouse Genome Informatics]; [https://oicr.on.ca/research-portfolio/ OICR]; [http://www.reactome.org Reactome]; [http://www.wormbase.org WormBase]; and [https://bioconda.github.io/ Bioconda].  +   +'''More information about this year's participating bioinformatics groups can be found [[GSoD_Groups | here]].'''  +   +To learn more about this year's event and how GSoD works, please refer to the [https://developers.google.com/season-of-docs FAQ].  +   +==Mailing lists, IRC, and other ways to get in touch  ==  +   +*Email: [mailto:robin.haw@oicr.on.ca robin.haw@oicr.on.ca] '''and''' [mailto:help@gmod.org help@gmod.org] -- find out more about GSoC, a specific project, or your potential mentor(s).  +*Discussion mailing lists: [http://groups.google.com/group/genome-informatics Genome Informatics Google Groups] - ask about our projects; join the community!  +*IRC channel: #genomeinformatics on Freenode.  +* Students and Mentors can email both [[User:Robin.haw|Robin]] and [[User:Scott|Scott]] to get more information about the program.  +   +==Project Ideas==  +   +Project Name: Reactome  +   +Project Description: Reactome is a free, open-source, curated and peer-reviewed pathway database. Our goal is to provide intuitive bioinformatics tools for the visualization, interpretation, and analysis of pathway knowledge to support basic research, genome analysis, modelling, systems biology, and education.  +   +===Project Website: https://reactome.org===  +   +====Project Idea #1 Name: Revising the Reactome User Guide====  +   +Description: The Reactome User Guide provides an introduction to Reactome, the user interfaces and the database content. Exercises are also provided to help user practice what they have learned. New functionality and improvements to the core website and software are constantly added to the User Guide. The outcome of this project is the revision of the existing User Guide, with updated and new tutorials,a set of how-to guides to support navigating the website and using the pathway visualization and analysis tools  +   +Docs Link: https://reactome.org/userguide  +   +Contacts: Robin Haw: robinhaw@gmail.com & Marc Gillepsie: gillespm@gmail.com.  +  +====Project Idea #2 Name: Updating the Reactome Curator Guide====  +   +Description: The Reactome Curator Guide contains an overview of the curatorial process as well as a step by step guide for annotating Reactome pathways. The curator guide takes new curators through the process of project design, entry, review, and release. Each one of these steps requires that the curator is familiar with the Reactome data model, software entry tools, process pipeline, and project management. In this sense, the curator guide serves as a compendium of learned lessons, curator philosophy, and a step-by-step process blueprint. The outcome of this project is the complete revision of the current guide to reflect new data entry tools, update the current glossary of terms to accommodate changes to data model, and create short tutorials that can be used to reinforce each learning step.  +   +Contacts: Marc Gillepsie gillespm@gmail.com and Robin Haw: robinhaw@gmail.com Robin.haw
Categories: Bio

GSoD

Fri, 05/01/2020 - 15:33

Created page with "Test - to be updated "

New page

Test - to be updated Robin.haw
Categories: Bio

JBrowse Configuration Guide

Tue, 03/24/2020 - 16:46

← Older revision Revision as of 20:46, 24 March 2020 Line 3,492: Line 3,492:         //page.on('console', msg => console.log('PAGE LOG:', msg.text()));        //page.on('console', msg => console.log('PAGE LOG:', msg.text()));         await page.setViewport({        await page.setViewport({ −         width:argv[4]||1000,+         width:+argv[4]||1000, −         height:argv[5]||600,+         height:+argv[5]||600,           deviceScaleFactor:argv[6]||2          deviceScaleFactor:argv[6]||2         });        }); Colin Diesh
Categories: Bio